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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...agagaattatattctgtctaatatgtttatatacataataaagaaaagaaattgtagattctgatgcaagtttttcttgtcctgtgatatgtacatgcagATAGTTTAGTTGGCAAGTCATAAATTAGTTTCATCTCTTAAGATTTCATTGGAAGCAGTCAAAATGTCACGGAAGGGTTTGATGGAACAAGACCTGAGTA

Basic information

species Glycine max
transcript GLYMA15G40750.1
intron # 1
splice site 3'
intron type U2

Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|209719408|gb|BW674488.1|BW674488
EST:     ATTCTTCACCGTTGTAGTTGTACTCAGCCACTCGGAGACACCGCTAATCG                         ATAGTTTAGTTGGCAAGTCATAAATTAGTTTCATCTCTTAAGATTTCATTG
genomic: ATTCTTCACCGTTGTAGTTGTACTCAGCCACTCGGAGACACCGCTAATCGgtaataatcc ... gtacatgcagATAGTTTAGTTGGCAAGTCATAAATTAGTTTCATCTCTTAAGATTTCATTG
EST: gi|209700869|gb|BW683099.1|BW683099
EST:     ATTCTTCACCGTTGTAGTTGTACTCAGCCACTCGGAGACACCGCTAATCG                         ATAGTTTAGTTGGCAAGTCATAAATTAGTTTCATCTCTTAAGATTTCATTG
genomic: ATTCTTCACCGTTGTAGTTGTACTCAGCCACTCGGAGACACCGCTAATCGgtaataatcc ... gtacatgcagATAGTTTAGTTGGCAAGTCATAAATTAGTTTCATCTCTTAAGATTTCATTG
EST: gi|192301270|gb|FG990190.1|FG990190
EST:     ATTCTTCACCGTTGTAGTTGTACTCAGCCACTCGGAGACACCGCTAATCG                         ATAGTTTAGTTGGCAAGTCATAAATTAGTTTCATCTCTTAAGATTTCATTG
genomic: ATTCTTCACCGTTGTAGTTGTACTCAGCCACTCGGAGACACCGCTAATCGgtaataatcc ... gtacatgcagATAGTTTAGTTGGCAAGTCATAAATTAGTTTCATCTCTTAAGATTTCATTG
EST: gi|192298646|gb|FG988557.1|FG988557
EST:     ATTCTTCACCGTTGTAGTTGTACTCAGCCACTCGGAGACACCGCTAATCG                         ATAGTTTAGTTGGCAAGTCATAAATTAGTTTCATCTCTTAAGATTTCATTG
genomic: ATTCTTCACCGTTGTAGTTGTACTCAGCCACTCGGAGACACCGCTAATCGgtaataatcc ... gtacatgcagATAGTTTAGTTGGCAAGTCATAAATTAGTTTCATCTCTTAAGATTTCATTG
EST: gi|213612205|gb|DB956886.1|DB956886
EST:     ATTCTTCACCGTTGTAGTTGTACTCAGCCACTCGGAGACACCGCTAATCG                         ATAGTTTAGTTGGCAAGTCATAAATTAGTTTCATCTCTTAAGATTTCATTG
genomic: ATTCTTCACCGTTGTAGTTGTACTCAGCCACTCGGAGACACCGCTAATCGgtaataatcc ... gtacatgcagATAGTTTAGTTGGCAAGTCATAAATTAGTTTCATCTCTTAAGATTTCATTG
EST: gi|192296353|gb|FG991591.1|FG991591
EST:     ATTCTTCACCGTTGTAGTTGTACTCAGCCACTCGGAGACACCGCTAATCG                         ATAGTTTAGTTGGCAAGTCATAAATTAGTTTCATCTCTTAAGATTTCATTG
genomic: ATTCTTCACCGTTGTAGTTGTACTCAGCCACTCGGAGACACCGCTAATCGgtaataatcc ... gtacatgcagATAGTTTAGTTGGCAAGTCATAAATTAGTTTCATCTCTTAAGATTTCATTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aagaaattgtagattctgatgcaagtttttcttgtcctgtgatatgtacatgcagATAGTTTAGTTGGCAAGTCATAAATTAGTTTCATCTCTTAAGATTTCATTGGAAGCAGTCAAAATGTCACGGAAGGGTTTGATGGAACAAGACCTGAGTA
             ttctgat  putative branch site (score: 3)
 aagttttt  TA-rich tract
















Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
agagaattatattctgtctaatatgtttatatacataataaagaaaagaaattgtagattctgatgcaagtttttcttgtcctgtgatatgtacatgcagATAGTTTAGTTGGCAAGTCATAAATTAGTTTCATCTCTTAAGATTTCATTGGAAGCAGTCAAAATGTCACGGAAGGGTTTGATGGAACAAGACCTGAGTA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA
- - - - - -ttctgtc
- - - - - - - - - - - - - - - - - - - - aagaaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ctgatgc